CourtemancheRamirezNattel98.h

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///////////////////////////////////////////////////////////////////////////////
//
// File: CourtemancheRamirezNattel98.h
//
// For more information, please see: http://www.nektar.info
//
// The MIT License
//
// Copyright (c) 2006 Division of Applied Mathematics, Brown University (USA),
// Department of Aeronautics, Imperial College London (UK), and Scientific
// Computing and Imaging Institute, University of Utah (USA).
//
// Permission is hereby granted, free of charge, to any person obtaining a
// copy of this software and associated documentation files (the "Software"),
// to deal in the Software without restriction, including without limitation
// the rights to use, copy, modify, merge, publish, distribute, sublicense,
// and/or sell copies of the Software, and to permit persons to whom the
// Software is furnished to do so, subject to the following conditions:
//
// The above copyright notice and this permission notice shall be included
// in all copies or substantial portions of the Software.
//
// THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
// OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
// FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
// THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
// LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
// FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
// DEALINGS IN THE SOFTWARE.
//
// Description: Courtemanche-Ramirez-Nattel cell model
//
///////////////////////////////////////////////////////////////////////////////
 
#ifndef NEKTAR_SOLVERS_ADRSOLVER_EQUATIONSYSTEMS_COURTEMANCHE_H
#define NEKTAR_SOLVERS_ADRSOLVER_EQUATIONSYSTEMS_COURTEMANCHE_H
 
#include <CardiacEPSolver/CellModels/CellModel.h>
 
namespace Nektar
{
class CourtemancheRamirezNattel98 : public CellModel
{
 
public:
    /// Creates an instance of this class
    static CellModelSharedPtr create(
        const LibUtilities::SessionReaderSharedPtr &pSession,
        const MultiRegions::ExpListSharedPtr &pField)
    {
        return MemoryManager<CourtemancheRamirezNattel98>::AllocateSharedPtr(
            pSession, pField);
    }
 
    /// Name of class
    static std::string className;
 
    /// Constructor
    CourtemancheRamirezNattel98(
        const LibUtilities::SessionReaderSharedPtr &pSession,
        const MultiRegions::ExpListSharedPtr &pField);
 
    /// Destructor
    virtual ~CourtemancheRamirezNattel98();
 
protected:
    /// Computes the reaction terms $f(u,v)$ and $g(u,v)$.
    virtual void v_Update(
        const Array<OneD, const Array<OneD, NekDouble>> &inarray,
        Array<OneD, Array<OneD, NekDouble>> &outarray,
        const NekDouble time) override;
 
    /// Prints a summary of the model parameters.
    virtual void v_GenerateSummary(SummaryList &s) override;
 
    virtual void v_SetInitialConditions() override;
 
    virtual std::string v_GetCellVarName(size_t idx) override;
 
private:
    NekDouble C_m;
    NekDouble g_Na;
    NekDouble g_K1;
    NekDouble g_to;
    NekDouble g_Kr;
    NekDouble g_Kur_scaling;
    NekDouble g_Ks;
    NekDouble g_b_Na;
    NekDouble g_b_Ca;
    NekDouble g_Ca_L;
    NekDouble R;
    NekDouble T;
    NekDouble F;
    NekDouble Na_o;
    NekDouble K_o;
    NekDouble sigma;
    NekDouble K_i;
    NekDouble K_m_Na_i;
    NekDouble I_Na_K_max;
    NekDouble I_NaCa_max;
    NekDouble gamma;
    NekDouble Ca_o;
    NekDouble K_m_Na;
    NekDouble K_m_Ca;
    NekDouble K_sat;
    NekDouble I_p_Ca_max;
    NekDouble Trpn_max;
    NekDouble Km_Trpn;
    NekDouble Cmdn_max;
    NekDouble Csqn_max;
    NekDouble Km_Cmdn;
    NekDouble Km_Csqn;
    NekDouble NSR_I_up_max;
    NekDouble NSR_I_Ca_max;
    NekDouble NSR_K_up;
    NekDouble JSR_K_rel;
    NekDouble JSR_V_cell;
    NekDouble JSR_V_rel;
    NekDouble JSR_V_up;
    NekDouble tau_tr;
    NekDouble K_Q10;
    NekDouble V_i;
 
    enum Variants
    {
        eOriginal,
        eAF
    };
    enum Variants model_variant;
 
    static std::string lookupIds[];
    static std::string def;
};
 
} // namespace Nektar
 
#endif